Interval valued intuitionistic (S,T)(S,T)-fuzzy HvH_v-submodules

On the basis of the concept of the interval valued intuitionistic fuzzy sets introduced by K.Atanassov, the notion of interval valued intuitionistic fuzzy $H_v$-submodules of an $H_v$-module with respect to $t$-norm $T$ and $s$-norm $S$ is given and the characteristic properties are described. The homomorphic image and the inverse image are investigated.In particular, the connections between interval valued intuitionistic $(S,T)$-fuzzy $H_v$-submodules and interval valued intuitionistic $(S,T)$-fuzzy submodules are discussed

Isolation and characterization of Agrobacterium strains from grapevines in Bulgarian vineyards and wild grapes, V. vinifera ssp. silvestris

Twenty strains of Agrobacterium spp. were isolated from grapevines derived from 9 different grape-growing regions in Bulgaria and from symptomless wild grapes, Vitis vinifera ssp. silvestris, naturally growing in forests of South-East Bulgaria. The isolated strains were examined by biochemical and pathogenicity tests and PCR analysis of chromosomal and plasmid-located genes. Two of the studied strains resemble non-pathogenic A. tumefaciens, but the others were determined as tumorigenic A. vitis. Only one out of 18 A. vitis strains, isolated from grapevines, was found to harbor vitopine Ti plasmid type. Surprisingly, all 4 A. vitis strains isolated from symptomless V. vinifera ssp. silvestris plants, proved to be tumorigenic. Thus, for the first time we report the isolation of pathogenic A. vitis strains from wild grapes. The strict correlation between the results from biochemical and virulence tests and PCR analysis suggests that the chosen PCR procedures can be used efficiently for direct PCR testing for the presence and tumorigenicity of A. vitis in grapevines.

Genotyping Vitis vinifera L. cultivars of Cyprus by microsatellite analysis

Twelve native Vitis vinifera L. cultivars of Cyprus were genotyped at 11 highly polymorphic microsatellite markers. The obtained microsatellite allelic profiles allowed precise identification and discrimination of all tested cultivars. Each cultivar had a unique allelic profile. The low PI value (5.1 x 10-9) demonstrated the high descriptive power of the chosen markers for the investigated set of grapevines. Three cases of synonymy of Cyprus cultivars with cultivars grown in other countries under different names were verified: (1) Cyprus Malaga and Muscat of Alexandria, (2) Cyprus Lefkas and Greek Verdzami, and (3) Cyprus Moscato, Bulgarian Tamyanka and Italian Moscato Bianco. The homonymy of Cyprus Sideritis and Greek Sideritis as well as of Cyprus Mavro and Bulgarian Mavrud was shown not to rely on genetic similarity.

Genetic diversity of Agrobacterium vitis strains, isolated from grapevines and wild grapes in Bulgaria, assessed by Cleaved Amplified Polymorphic Sequences analysis of 16S-23S rDNA

Nineteen tumorigenic Agrobacterium vitis strains isolated from commercial vineyards and wild grapes at different locations in Bulgaria were studied in relation to the Ti plasmid type and chromosomal background. The PCR analysis showed that all but one of the strains harbor an octopine/cucumopine type of Ti plasmid and one carries a vitopine type. The genetic diversity among the studied strains and 20 more A. vitis strains originating from different geographic regions in Europe, Asia, USA and South Africa was assessed by Cleaved Amplified Polymorphic Sequences (CAPS) analysis of 16S-23S rDNA region. The comparison of the obtained CAPS profiles and performed cluster analysis showed a high level of polymorphism among the studied strains distributed in totally 15 different groups within two main clusters. All Bulgarian strains are located in only three groups within one of the clusters. A high level of correlation between the chromosomal background and type of the carried Ti plasmids was found. The performed CAPS analysis demonstrated that all A. vitis strains isolated from wild grapes (V. vinifera ssp. silvestris) showed CAPS profiles identical with a number of strains isolated from commercial vineyards from different vine-growing regions in Bulgaria. A possible origin of this group of strains from an ancestral A. vitis strain, which initially inhabits wild grapes (V. vinifera ssp. silvestris) and later has been disseminated to cultivated grapevines is proposed

Construction of plant transformation vectors carrying beet necrotic yellow vein virus coat protein gene (i) - transformation vectors

Coat protein gene of beet necrotic yellow vein virus (BNYVV) was isolated from inoculated sugar beet roots and leaves of Chenopodium quinoa and Tetragonia expansa, by RT-PCR and imuno capture RT-PCR. Specific primers were made to complement coat protein gene and untranslated leader sequence, so that two fragments were obtained: long (731 bp), which contained coat protein gene and leader sequence, and short (587 bp), with coat protein gene. Fragments were cloned in two plant transformation vectors: pCAMBIA 3301M and pCAMBIA 1304M, which were modified by removing multicloning site and NcoI restriction site at the 5' end of the reporter genes. Vector pC3301M had bar gene which confers resistance against the herbicide gluphosinate ammonium as selectable marker, and pC1304M had gene for resistance to antibiotic hygromycin. Three constructs were made from each vector: CPL, containing coat protein gene with leader sequence; CPS with gene for coat protein, and CPSas with coat protein gene in antisense orientation. All constructs were transfered to Agrobacterium tumefaciens strain LBA4404

Genotyping of Bulgarian Vitis vinifera L. cultivars by microsatellite analysis

A characterization of the Bulgarian grapevine genepool (Vitis vinifera L. cultivars) was initiated through microsatellite analysis. Seventy four wine and table grapevine varieties from the National List of Cultivars, were analyzed at 9 microsatellite loci: VVS2, ssrVvUCH11, ssrVvUCH 29, ssrVrZAG21, ssrVrZAG47, ssrVrZAG62, ssrVrZAG64, ssrVrZAG79 and ssrVrZAG83. The high genetic diversity (78 %) allowed accurate identification and discrimination of the cultivars. The low PI value (1.201 x 10-8) reflects the high discriminative power of the chosen set of markers for the investigated population. Based on the microsatellite allele data, two pairs of old native varieties, Misket Cherven and Misket Vrachanski; Tamyanka and Tamyanka tvarda, were considered distinct cultivars. The synonymy ofTamyanka, Italian Moscato Bianco and Greek Moschato Kerkyras andPamid and Greek Pamidi was verified, while the putative synonymy of Mavrud and Greek Mavroudi Arachovis was rejected.Further utilization of microsatellite profiling in the management of the Bulgarian grapevine genepool is discussed.

Genetic diversity in native Bulgarian grapevine germplasm (Vitis vinifera L.) based on nuclear and chloroplast microsatellite polymorphisms

Fifty one wild specimens collected in different areas in Bulgaria and nineteen native Bulgarian grapevine cultivars were genotyped with 7 nuclear and 5 chloroplast SSR markers. Based on the microsatellite allelic profile six wild samples, collected from the Danube Riverbank, were considered non vinifera genotypes. The genetic diversity for nuclear loci observed in the cultivated grapevines was comparable to that found in other cultivated collections. However, lower genetic diversity was observed in the set of wild samples. The dendrogram based on nuclear SSRs separated most of the cultivated grapevines from the wild samples. Four chlorotypes corresponding to previously determined chlorotypes A, B, C and D, were identified in the analyzed samples that occurred with different frequencies in groups of wild and cultivated plants. The most frequent chlorotype among wild samples was A, while it was C in the cultivated samples. The differentiation of Bulgarian grape chlorotypes in the context of differentiation of chlorotypes in Eurasian grape flora is discussed.

An intuitionistic approach to scoring DNA sequences against transcription factor binding site motifs

Background: Transcription factors (TFs) control transcription by binding to specific regions of DNA called transcription factor binding sites (TFBSs). The identification of TFBSs is a crucial problem in computational biology and includes the subtask of predicting the location of known TFBS motifs in a given DNA sequence. It has previously been shown that, when scoring matches to known TFBS motifs, interdependencies between positions within a motif should be taken into account. However, this remains a challenging task owing to the fact that sequences similar to those of known TFBSs can occur by chance with a relatively high frequency. Here we present a new method for matching sequences to TFBS motifs based on intuitionistic fuzzy sets (IFS) theory, an approach that has been shown to be particularly appropriate for tackling problems that embody a high degree of uncertainty. Results: We propose SCintuit, a new scoring method for measuring sequence-motif affinity based on IFS theory. Unlike existing methods that consider dependencies between positions, SCintuit is designed to prevent overestimation of less conserved positions of TFBSs. For a given pair of bases, SCintuit is computed not only as a function of their combined probability of occurrence, but also taking into account the individual importance of each single base at its corresponding position. We used SCintuit to identify known TFBSs in DNA sequences. Our method provides excellent results when dealing with both synthetic and real data, outperforming the sensitivity and the specificity of two existing methods in all the experiments we performed. Conclusions: The results show that SCintuit improves the prediction quality for TFs of the existing approaches without compromising sensitivity. In addition, we show how SCintuit can be successfully applied to real research problems. In this study the reliability of the IFS theory for motif discovery tasks is proven

Interval valued intuitionistic fuzzy evaluations for analysis of a student's knowledge in university e-learning courses

© The Korean Institute of Intelligent Systems. In the paper a method is proposed for evaluation of the students' knowledge obtained in the university e-learning courses and an evaluation of the whole student class. For the assessment of the student's solution of the respective assessment units the theory of intuitionistic fuzzy sets is used, while for the class evaluation, interval valued intuitionistic fuzzy sets is used. The obtained intuitionistic fuzzy estimations reflect the degree of each student's good or poor performances, for each assessment unit. The interval valued intuitionistic fuzzy evaluations are based on the separate student's evaluations. We also consider a degree of uncertainty that represents such cases wherein the student is currently unable to solve the problem. The method presented here provides the possibility for the algorithmization of the process of forming the student's evaluations